breseq  version 0.33.1  revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
MC JC 70,406 Δ6 bp coding (20‑25/879 nt) araC → ara regulon transcriptional activator; autorepressor
MC JC 257,908 Δ776 bp [crl] [crl]
JC 924,950 (CTG)3→2 coding (1687‑1689/2277 nt) clpA → ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity
RA 2,173,363 Δ2 bp intergenic (‑1/+1) gatC ← / ← gatC pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA 2,173,497 G→A pseudogene (782/914 nt) gatC ← pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA 2,939,592 C→A S75R (AGC→AGA)  fucR → l‑fucose operon activator
RA 3,560,455 +G intergenic (‑2/+1) glpR ← / ← glpR pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA 3,622,299 G→A T1036T (ACG→ACA)  rhsB → Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
MC JC 3,815,859 Δ82 bp [rph]–[rph] [rph], [rph]
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 582856 584682 1827 27 [24] [26] 27 tfaX–[ompT] tfaX,appY,[ompT]
* * ÷ NC_000913 1465021 1465380 360 28 [26] [26] 27 [paaY]–ynbG [paaY],ynbG
* * ÷ NC_000913 1978398 1979708 1311 27 [23] [26] 30 insB1–insA insB1,insA
* * ÷ NC_000913 2033449 2034113 665 27 [24] [25] 29 [yedR]–[yedS] [yedR],rseX,[yedS]
* * ÷ NC_000913 2455525 2456192 668 27 [26] [26] 27 [yfcV] [yfcV]
* * ÷ NC_000913 2469008 2470604 1597 28 [25] [26] 27 [gtrB]–gtrS [gtrB],gtrS
* * ÷ NC_000913 2990671 2991340 670 27 [26] [26] 28 [ygeF]–[ygeG] [ygeF],ygeF,[ygeG]
* * ÷ NC_000913 3268702 3269663 962 27 [25] [22] 30 [yhaC] [yhaC]
* * ÷ NC_000913 3286963 3287455 493 27 [26] [24] 27 [agaI]–[yraH] [agaI],[yraH]
* * ÷ NC_000913 3633840 3635007 1168 27 [26] [26] 28 [yhiL]–[yhiM] [yhiL],[yhiM]
* * ÷ NC_000913 3769516 3770376 861 27 [26] [26] 27 [yibV]–[yibH] [yibV],yibV,yibU,yibU,[yibH]
* * ÷ NC_000913 3796956 3798346 1391 27 [25] [23] 27 [waaL]–[waaU] [waaL],[waaU]
* * ÷ NC_000913 3798496 3800377 1882 28 [26] [24] 28 [waaU]–[waaY] [waaU],waaZ,[waaY]
* * ÷ NC_000913 3804167 3805208 1042 27 [24] [26] 27 waaS–[waaP] waaS,[waaP]
* * ÷ NC_000913 4251318 4252075 758 28 [24] [25] 28 yjbI pseudogene, SopA‑related, pentapeptide repeats‑containing

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 12994980 (0.000)23 (0.330) 21/538 2.4 100% intergenic (+253/‑1684) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
?NC_000913 1300698 = 0 (0.000)intergenic (+1453/‑484) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein